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<h1>Cell Class Reference</h1><!-- doxytag: class="Cell" -->
<p><a href="classCell-members.html">List of all members.</a></p>
<table border="0" cellpadding="0" cellspacing="0">
<tr><td colspan="2"><h2>Public Member Functions</h2></td></tr>
<tr><td class="memItemLeft" align="right" valign="top">&nbsp;</td><td class="memItemRight" valign="bottom"><a class="el" href="classCell.html#a394510643e8664cf12b5efaf5cb99f71">Cell</a> ()</td></tr>
<tr><td class="memItemLeft" align="right" valign="top">virtual&nbsp;</td><td class="memItemRight" valign="bottom"><a class="el" href="classCell.html#a9fa559f7a28e2b4336c6879ca09304d8">~Cell</a> ()</td></tr>
<tr><td class="memItemLeft" align="right" valign="top">int&nbsp;</td><td class="memItemRight" valign="bottom"><a class="el" href="classCell.html#a21d548d458486cb101c787ff34595848">nextGeneration</a> ()</td></tr>
<tr><td class="memItemLeft" align="right" valign="top">int&nbsp;</td><td class="memItemRight" valign="bottom"><a class="el" href="classCell.html#a1b9ffd156292e2412d44e2b0ea43c835">getScore</a> (int)</td></tr>
<tr><td class="memItemLeft" align="right" valign="top">int&nbsp;</td><td class="memItemRight" valign="bottom"><a class="el" href="classCell.html#a7b4cbc6fed25a9a8d5d4c5a60fe85590">getCellID</a> ()</td></tr>
<tr><td class="memItemLeft" align="right" valign="top">ListDigraph::Node&nbsp;</td><td class="memItemRight" valign="bottom"><a class="el" href="classCell.html#a6676a497230bcc7664b9ffd245c395b4">addProtein</a> (float)</td></tr>
<tr><td class="memItemLeft" align="right" valign="top">ListDigraph::Node&nbsp;</td><td class="memItemRight" valign="bottom"><a class="el" href="classCell.html#a4ab6dc23f02be80ae44c9b71bad22579">addProtein</a> (<a class="el" href="classProtein.html">Protein</a> *)</td></tr>
<tr><td class="memItemLeft" align="right" valign="top">ListDigraph::Node&nbsp;</td><td class="memItemRight" valign="bottom"><a class="el" href="classCell.html#a51517080a4d784c1b825dd7bbe520368">addMRNA</a> (float)</td></tr>
<tr><td class="memItemLeft" align="right" valign="top">ListDigraph::Node&nbsp;</td><td class="memItemRight" valign="bottom"><a class="el" href="classCell.html#a7d39f98796a73ac263a52550c99a15d8">addDNA</a> (float)</td></tr>
<tr><td class="memItemLeft" align="right" valign="top">ListDigraph::Arc&nbsp;</td><td class="memItemRight" valign="bottom"><a class="el" href="classCell.html#a1c787fc2fe52788c8271eb815b370aba">addInteraction</a> (ListDigraph::Node, ListDigraph::Node, float, float, float, const char *)</td></tr>
<tr><td class="memItemLeft" align="right" valign="top">ListDigraph::Arc&nbsp;</td><td class="memItemRight" valign="bottom"><a class="el" href="classCell.html#a62f2f6b4de9c76c6ead913b783fd8535">addInteraction</a> (ListDigraph::Node, ListDigraph::Node, <a class="el" href="structQuantity.html">Quantity</a> *, float, float, const char *)</td></tr>
<tr><td class="memItemLeft" align="right" valign="top">int&nbsp;</td><td class="memItemRight" valign="bottom"><a class="el" href="classCell.html#ad316c047bcd04f6b4f0a3fe6cf3f2eaf">newComplex</a> ()</td></tr>
<tr><td class="memItemLeft" align="right" valign="top">int&nbsp;</td><td class="memItemRight" valign="bottom"><a class="el" href="classCell.html#a8ec1b55132525da1ae7bf7f05b9e4893">newBasic</a> ()</td></tr>
<tr><td class="memItemLeft" align="right" valign="top">int&nbsp;</td><td class="memItemRight" valign="bottom"><a class="el" href="classCell.html#a2d93a1672e574f231c86d86067b31f74">fwdRateChange</a> ()</td></tr>
<tr><td class="memItemLeft" align="right" valign="top">int&nbsp;</td><td class="memItemRight" valign="bottom"><a class="el" href="classCell.html#a3a80841a57d54309973dc947427f91f6">revRateChange</a> ()</td></tr>
<tr><td class="memItemLeft" align="right" valign="top">int&nbsp;</td><td class="memItemRight" valign="bottom"><a class="el" href="classCell.html#acec681969db4cc0fb80021a5613d8e8c">degRateChange</a> ()</td></tr>
<tr><td class="memItemLeft" align="right" valign="top">int&nbsp;</td><td class="memItemRight" valign="bottom"><a class="el" href="classCell.html#ac0159abe04ce33e168782e646a4424e3">newPostTransMod</a> ()</td></tr>
<tr><td class="memItemLeft" align="right" valign="top">int&nbsp;</td><td class="memItemRight" valign="bottom"><a class="el" href="classCell.html#af8333316f26868a1f1cad1291c8770f4">histoneMod</a> ()</td></tr>
<tr><td class="memItemLeft" align="right" valign="top">int&nbsp;</td><td class="memItemRight" valign="bottom"><a class="el" href="classCell.html#a97385b8986611c19ff9f97597a33a6ff">newPromoter</a> ()</td></tr>
<tr><td class="memItemLeft" align="right" valign="top">bool&nbsp;</td><td class="memItemRight" valign="bottom"><a class="el" href="classCell.html#a3184d63ac9ee1e4cb60b9fd38c870bf0">isComplexed</a> (<a class="el" href="classProtein.html">Protein</a> *, <a class="el" href="classProtein.html">Protein</a> *)</td></tr>
<tr><td class="memItemLeft" align="right" valign="top">void&nbsp;</td><td class="memItemRight" valign="bottom"><a class="el" href="classCell.html#ac165ee3b5920d5b4ac200ae6b016cea8">rungeKuttaEvaluate</a> (float, float)</td></tr>
<tr><td colspan="2"><h2>Public Attributes</h2></td></tr>
<tr><td class="memItemLeft" align="right" valign="top"><a class="anchor" id="af298febd07d00412cb21193635dd994f"></a><!-- doxytag: member="Cell::equations" ref="af298febd07d00412cb21193635dd994f" args="" -->
ListDigraph *&nbsp;</td><td class="memItemRight" valign="bottom"><b>equations</b></td></tr>
<tr><td class="memItemLeft" align="right" valign="top"><a class="anchor" id="ac351fcdec263944de0ed9ee450e76c8d"></a><!-- doxytag: member="Cell::vertexes" ref="ac351fcdec263944de0ed9ee450e76c8d" args="" -->
ListDigraph::NodeMap&lt; <a class="el" href="classMolecule.html">Molecule</a> * &gt; *&nbsp;</td><td class="memItemRight" valign="bottom"><b>vertexes</b></td></tr>
<tr><td class="memItemLeft" align="right" valign="top"><a class="anchor" id="a1b62bdc51780e9563773cea863f7a733"></a><!-- doxytag: member="Cell::edges" ref="a1b62bdc51780e9563773cea863f7a733" args="" -->
ListDigraph::ArcMap<br class="typebreak"/>
&lt; <a class="el" href="classInteraction.html">Interaction</a> * &gt; *&nbsp;</td><td class="memItemRight" valign="bottom"><b>edges</b></td></tr>
<tr><td class="memItemLeft" align="right" valign="top"><a class="anchor" id="af598915eaed383dd52b2abe21dec00d0"></a><!-- doxytag: member="Cell::proteinList" ref="af598915eaed383dd52b2abe21dec00d0" args="" -->
vector&lt; <a class="el" href="classProtein.html">Protein</a> * &gt;&nbsp;</td><td class="memItemRight" valign="bottom"><b>proteinList</b></td></tr>
<tr><td class="memItemLeft" align="right" valign="top"><a class="anchor" id="ab3aecc9b39def0a1444b4c2c7cddf059"></a><!-- doxytag: member="Cell::cellID" ref="ab3aecc9b39def0a1444b4c2c7cddf059" args="" -->
int&nbsp;</td><td class="memItemRight" valign="bottom"><b>cellID</b></td></tr>
</table>
<hr/><h2>Constructor &amp; Destructor Documentation</h2>
<a class="anchor" id="a394510643e8664cf12b5efaf5cb99f71"></a><!-- doxytag: member="Cell::Cell" ref="a394510643e8664cf12b5efaf5cb99f71" args="()" -->
<div class="memitem">
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      <table class="memname">
        <tr>
          <td class="memname">Cell::Cell </td>
          <td>(</td>
          <td class="paramname"></td>
          <td>&nbsp;)&nbsp;</td>
          <td></td>
        </tr>
      </table>
</div>
<div class="memdoc">
<p><a class="el" href="classCell.html">Cell</a> constructor.</p>
<p>The <a class="el" href="classCell.html">Cell</a> contains all information about its kinetic equations (in the form of a Directed Graph) describing the concentration of the Molecules it contains. The <a class="el" href="classCell.html">Cell</a> constructor also creates the directory structure to hold associated output files. </p>

</div>
</div>
<a class="anchor" id="a9fa559f7a28e2b4336c6879ca09304d8"></a><!-- doxytag: member="Cell::~Cell" ref="a9fa559f7a28e2b4336c6879ca09304d8" args="()" -->
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          <td class="memname">Cell::~Cell </td>
          <td>(</td>
          <td class="paramname"></td>
          <td>&nbsp;)&nbsp;</td>
          <td><code> [virtual]</code></td>
        </tr>
      </table>
</div>
<div class="memdoc">
<p><a class="el" href="classCell.html">Cell</a> destructor.</p>
<p>Close output file, delete molecule and interaction objects, and delete other containers. </p>

</div>
</div>
<hr/><h2>Member Function Documentation</h2>
<a class="anchor" id="a7d39f98796a73ac263a52550c99a15d8"></a><!-- doxytag: member="Cell::addDNA" ref="a7d39f98796a73ac263a52550c99a15d8" args="(float)" -->
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          <td class="memname">ListDigraph::Node Cell::addDNA </td>
          <td>(</td>
          <td class="paramtype">float&nbsp;</td>
          <td class="paramname"> <em>concentration</em></td>
          <td>&nbsp;)&nbsp;</td>
          <td></td>
        </tr>
      </table>
</div>
<div class="memdoc">
<p>Add a <a class="el" href="classDNA.html">DNA</a> with the given initial concentration to the <a class="el" href="classCell.html">Cell</a>.</p>
<dl><dt><b>Parameters:</b></dt><dd>
  <table border="0" cellspacing="2" cellpadding="0">
    <tr><td valign="top"></td><td valign="top"><em>concentration</em>&nbsp;</td><td>Initial concentration for the new <a class="el" href="classDNA.html">DNA</a></td></tr>
  </table>
  </dd>
</dl>
<dl class="return"><dt><b>Returns:</b></dt><dd>A Node object in the graph containing a newly created <a class="el" href="classDNA.html">DNA</a>. </dd></dl>

</div>
</div>
<a class="anchor" id="a62f2f6b4de9c76c6ead913b783fd8535"></a><!-- doxytag: member="Cell::addInteraction" ref="a62f2f6b4de9c76c6ead913b783fd8535" args="(ListDigraph::Node, ListDigraph::Node, Quantity *, float, float, const char *)" -->
<div class="memitem">
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          <td class="memname">ListDigraph::Arc Cell::addInteraction </td>
          <td>(</td>
          <td class="paramtype">ListDigraph::Node&nbsp;</td>
          <td class="paramname"> <em>from</em>, </td>
        </tr>
        <tr>
          <td class="paramkey"></td>
          <td></td>
          <td class="paramtype">ListDigraph::Node&nbsp;</td>
          <td class="paramname"> <em>to</em>, </td>
        </tr>
        <tr>
          <td class="paramkey"></td>
          <td></td>
          <td class="paramtype"><a class="el" href="structQuantity.html">Quantity</a> *&nbsp;</td>
          <td class="paramname"> <em>rate</em>, </td>
        </tr>
        <tr>
          <td class="paramkey"></td>
          <td></td>
          <td class="paramtype">float&nbsp;</td>
          <td class="paramname"> <em>substrateFactor</em>, </td>
        </tr>
        <tr>
          <td class="paramkey"></td>
          <td></td>
          <td class="paramtype">float&nbsp;</td>
          <td class="paramname"> <em>productFactor</em>, </td>
        </tr>
        <tr>
          <td class="paramkey"></td>
          <td></td>
          <td class="paramtype">const char *&nbsp;</td>
          <td class="paramname"> <em>interactionName</em></td><td>&nbsp;</td>
        </tr>
        <tr>
          <td></td>
          <td>)</td>
          <td></td><td></td><td></td>
        </tr>
      </table>
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<div class="memdoc">
<p>Add an interation between two nodes in the <a class="el" href="classCell.html">Cell</a>.</p>
<dl><dt><b>Parameters:</b></dt><dd>
  <table border="0" cellspacing="2" cellpadding="0">
    <tr><td valign="top"></td><td valign="top"><em>from</em>&nbsp;</td><td>The Node in the graph containing the substrate <a class="el" href="classMolecule.html">Molecule</a> </td></tr>
    <tr><td valign="top"></td><td valign="top"><em>to</em>&nbsp;</td><td>The Node in the graph containing the product <a class="el" href="classMolecule.html">Molecule</a> </td></tr>
    <tr><td valign="top"></td><td valign="top"><em>rate</em>&nbsp;</td><td>A pointer to a <a class="el" href="structQuantity.html">Quantity</a> object containing the rate at which the reaction takes place </td></tr>
    <tr><td valign="top"></td><td valign="top"><em>substrateFactor</em>&nbsp;</td><td>A constant multiplied factor of the amount of substrate <a class="el" href="classMolecule.html">Molecule</a> consumed </td></tr>
    <tr><td valign="top"></td><td valign="top"><em>productFactor</em>&nbsp;</td><td>A constant multiplied factor of the amount of product <a class="el" href="classMolecule.html">Molecule</a> produced </td></tr>
    <tr><td valign="top"></td><td valign="top"><em>interactionName</em>&nbsp;</td><td>A description for the interaction (fwd, rev, deg, txn, tsln)</td></tr>
  </table>
  </dd>
</dl>
<dl class="return"><dt><b>Returns:</b></dt><dd>An Arc object in the graph containing the newly created <a class="el" href="classInteraction.html">Interaction</a>. </dd></dl>

</div>
</div>
<a class="anchor" id="a1c787fc2fe52788c8271eb815b370aba"></a><!-- doxytag: member="Cell::addInteraction" ref="a1c787fc2fe52788c8271eb815b370aba" args="(ListDigraph::Node, ListDigraph::Node, float, float, float, const char *)" -->
<div class="memitem">
<div class="memproto">
      <table class="memname">
        <tr>
          <td class="memname">ListDigraph::Arc Cell::addInteraction </td>
          <td>(</td>
          <td class="paramtype">ListDigraph::Node&nbsp;</td>
          <td class="paramname"> <em>from</em>, </td>
        </tr>
        <tr>
          <td class="paramkey"></td>
          <td></td>
          <td class="paramtype">ListDigraph::Node&nbsp;</td>
          <td class="paramname"> <em>to</em>, </td>
        </tr>
        <tr>
          <td class="paramkey"></td>
          <td></td>
          <td class="paramtype">float&nbsp;</td>
          <td class="paramname"> <em>rate</em>, </td>
        </tr>
        <tr>
          <td class="paramkey"></td>
          <td></td>
          <td class="paramtype">float&nbsp;</td>
          <td class="paramname"> <em>substrateFactor</em>, </td>
        </tr>
        <tr>
          <td class="paramkey"></td>
          <td></td>
          <td class="paramtype">float&nbsp;</td>
          <td class="paramname"> <em>productFactor</em>, </td>
        </tr>
        <tr>
          <td class="paramkey"></td>
          <td></td>
          <td class="paramtype">const char *&nbsp;</td>
          <td class="paramname"> <em>interactionName</em></td><td>&nbsp;</td>
        </tr>
        <tr>
          <td></td>
          <td>)</td>
          <td></td><td></td><td></td>
        </tr>
      </table>
</div>
<div class="memdoc">
<p>Add an interation between two nodes in the <a class="el" href="classCell.html">Cell</a>.</p>
<dl><dt><b>Parameters:</b></dt><dd>
  <table border="0" cellspacing="2" cellpadding="0">
    <tr><td valign="top"></td><td valign="top"><em>from</em>&nbsp;</td><td>The Node in the graph containing the substrate <a class="el" href="classMolecule.html">Molecule</a> </td></tr>
    <tr><td valign="top"></td><td valign="top"><em>to</em>&nbsp;</td><td>The Node in the graph containing the product <a class="el" href="classMolecule.html">Molecule</a> </td></tr>
    <tr><td valign="top"></td><td valign="top"><em>rate</em>&nbsp;</td><td>The kinetic rate at which the reaction takes place </td></tr>
    <tr><td valign="top"></td><td valign="top"><em>substrateFactor</em>&nbsp;</td><td>A constant multiplied factor of the amount of substrate <a class="el" href="classMolecule.html">Molecule</a> consumed </td></tr>
    <tr><td valign="top"></td><td valign="top"><em>productFactor</em>&nbsp;</td><td>A constant multiplied factor of the amount of product <a class="el" href="classMolecule.html">Molecule</a> produced </td></tr>
    <tr><td valign="top"></td><td valign="top"><em>interactionName</em>&nbsp;</td><td>A description for the interaction (fwd, rev, deg, txn, tsln)</td></tr>
  </table>
  </dd>
</dl>
<dl class="return"><dt><b>Returns:</b></dt><dd>An Arc object in the graph containing the newly created <a class="el" href="classInteraction.html">Interaction</a>. </dd></dl>

</div>
</div>
<a class="anchor" id="a51517080a4d784c1b825dd7bbe520368"></a><!-- doxytag: member="Cell::addMRNA" ref="a51517080a4d784c1b825dd7bbe520368" args="(float)" -->
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          <td class="memname">ListDigraph::Node Cell::addMRNA </td>
          <td>(</td>
          <td class="paramtype">float&nbsp;</td>
          <td class="paramname"> <em>concentration</em></td>
          <td>&nbsp;)&nbsp;</td>
          <td></td>
        </tr>
      </table>
</div>
<div class="memdoc">
<p>Add an <a class="el" href="classMRNA.html">MRNA</a> with the given initial concentration to the <a class="el" href="classCell.html">Cell</a>.</p>
<dl><dt><b>Parameters:</b></dt><dd>
  <table border="0" cellspacing="2" cellpadding="0">
    <tr><td valign="top"></td><td valign="top"><em>concentration</em>&nbsp;</td><td>Initial concentration for the new <a class="el" href="classMRNA.html">MRNA</a></td></tr>
  </table>
  </dd>
</dl>
<dl class="return"><dt><b>Returns:</b></dt><dd>A Node object in the graph containing a newly created <a class="el" href="classMRNA.html">MRNA</a>. </dd></dl>

</div>
</div>
<a class="anchor" id="a4ab6dc23f02be80ae44c9b71bad22579"></a><!-- doxytag: member="Cell::addProtein" ref="a4ab6dc23f02be80ae44c9b71bad22579" args="(Protein *)" -->
<div class="memitem">
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      <table class="memname">
        <tr>
          <td class="memname">ListDigraph::Node Cell::addProtein </td>
          <td>(</td>
          <td class="paramtype"><a class="el" href="classProtein.html">Protein</a> *&nbsp;</td>
          <td class="paramname"> <em>protein</em></td>
          <td>&nbsp;)&nbsp;</td>
          <td></td>
        </tr>
      </table>
</div>
<div class="memdoc">
<p>Add an existing protein object to the <a class="el" href="classCell.html">Cell</a>.</p>
<dl><dt><b>Parameters:</b></dt><dd>
  <table border="0" cellspacing="2" cellpadding="0">
    <tr><td valign="top"></td><td valign="top"><em>protein</em>&nbsp;</td><td>Pointer to a protein to add to the graph.</td></tr>
  </table>
  </dd>
</dl>
<dl class="return"><dt><b>Returns:</b></dt><dd>A Node object in the graph containing the newly added <a class="el" href="classProtein.html">Protein</a>. </dd></dl>

</div>
</div>
<a class="anchor" id="a6676a497230bcc7664b9ffd245c395b4"></a><!-- doxytag: member="Cell::addProtein" ref="a6676a497230bcc7664b9ffd245c395b4" args="(float)" -->
<div class="memitem">
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      <table class="memname">
        <tr>
          <td class="memname">ListDigraph::Node Cell::addProtein </td>
          <td>(</td>
          <td class="paramtype">float&nbsp;</td>
          <td class="paramname"> <em>concentration</em></td>
          <td>&nbsp;)&nbsp;</td>
          <td></td>
        </tr>
      </table>
</div>
<div class="memdoc">
<p>Add a protein with the given initial concentration to the <a class="el" href="classCell.html">Cell</a>.</p>
<dl><dt><b>Parameters:</b></dt><dd>
  <table border="0" cellspacing="2" cellpadding="0">
    <tr><td valign="top"></td><td valign="top"><em>concentration</em>&nbsp;</td><td>Initial concentration for the new <a class="el" href="classProtein.html">Protein</a></td></tr>
  </table>
  </dd>
</dl>
<dl class="return"><dt><b>Returns:</b></dt><dd>A Node object in the graph containing a newly created <a class="el" href="classProtein.html">Protein</a>. </dd></dl>

</div>
</div>
<a class="anchor" id="acec681969db4cc0fb80021a5613d8e8c"></a><!-- doxytag: member="Cell::degRateChange" ref="acec681969db4cc0fb80021a5613d8e8c" args="()" -->
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<p>Random rate change of a degradation interaction. </p>

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<a class="anchor" id="a2d93a1672e574f231c86d86067b31f74"></a><!-- doxytag: member="Cell::fwdRateChange" ref="a2d93a1672e574f231c86d86067b31f74" args="()" -->
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<p>Random rate change of a forward (protein -&gt; ptm, protein -&gt; complex) or translation/transcription interaction. </p>

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<p>Return the current CellID.</p>
<p>Upon creation, each <a class="el" href="classCell.html">Cell</a> receives a unique increasing ID.</p>
<dl class="return"><dt><b>Returns:</b></dt><dd>Unique identifier for the current <a class="el" href="classCell.html">Cell</a>. </dd></dl>

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<a class="anchor" id="a1b9ffd156292e2412d44e2b0ea43c835"></a><!-- doxytag: member="Cell::getScore" ref="a1b9ffd156292e2412d44e2b0ea43c835" args="(int)" -->
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<p>Assign a score to the <a class="el" href="classCell.html">Cell</a> based on Runge-Kutta data calculated for Molecules.</p>
<p>The scoring method checks successive data points, and counts the number of times the slope changes between positive or negative.</p>
<p>The Cell's score is then taken to be equal to the <a class="el" href="classMolecule.html">Molecule</a> with the highest score (most number of changes).</p>
<dl class="return"><dt><b>Returns:</b></dt><dd>The score of the Runge-Kutta data of the current Cell/Generation as determined by the evaluation function. </dd></dl>

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<p>Apply a histone modification to a random transcription interaction. </p>

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<a class="anchor" id="a3184d63ac9ee1e4cb60b9fd38c870bf0"></a><!-- doxytag: member="Cell::isComplexed" ref="a3184d63ac9ee1e4cb60b9fd38c870bf0" args="(Protein *, Protein *)" -->
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<p>Fill in </p>

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<p>Fill in </p>

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<a class="anchor" id="ad316c047bcd04f6b4f0a3fe6cf3f2eaf"></a><!-- doxytag: member="Cell::newComplex" ref="ad316c047bcd04f6b4f0a3fe6cf3f2eaf" args="()" -->
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<p>Fill in </p>

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<a class="anchor" id="ac0159abe04ce33e168782e646a4424e3"></a><!-- doxytag: member="Cell::newPostTransMod" ref="ac0159abe04ce33e168782e646a4424e3" args="()" -->
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<p>Apply a Post-Translational Modification to a randomly chosen <a class="el" href="classProtein.html">Protein</a>. </p>

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<a class="anchor" id="a97385b8986611c19ff9f97597a33a6ff"></a><!-- doxytag: member="Cell::newPromoter" ref="a97385b8986611c19ff9f97597a33a6ff" args="()" -->
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<p>Not implemented </p>

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<a class="anchor" id="a21d548d458486cb101c787ff34595848"></a><!-- doxytag: member="Cell::nextGeneration" ref="a21d548d458486cb101c787ff34595848" args="()" -->
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<p>Increment the current generation number, and mutate the <a class="el" href="classCell.html">Cell</a>.</p>
<dl class="return"><dt><b>Returns:</b></dt><dd>The return value of the mutate() method </dd></dl>

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<a class="anchor" id="a3a80841a57d54309973dc947427f91f6"></a><!-- doxytag: member="Cell::revRateChange" ref="a3a80841a57d54309973dc947427f91f6" args="()" -->
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<p>Random rate change of a reverse interaction. </p>

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<a class="anchor" id="ac165ee3b5920d5b4ac200ae6b016cea8"></a><!-- doxytag: member="Cell::rungeKuttaEvaluate" ref="ac165ee3b5920d5b4ac200ae6b016cea8" args="(float, float)" -->
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          <td class="memname">void Cell::rungeKuttaEvaluate </td>
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<p>Calculate concentration values for molecules in the cell over time, using the 4th order Runge-Kutta method.</p>
<p>The Directed Graph (ListDigraph equations) is representative of the differential equations which describe the concentrations of the Molecules. This implementation of Runge-Kutta operates directly on the DiGraph to calculate successive data points (x,y) = (t*rkTimestep, rkData[t]) while t*rkTimestep &lt; rkTimeLimit </p>

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<hr/>The documentation for this class was generated from the following files:<ul>
<li><a class="el" href="Cell_8h_source.html">Cell.h</a></li>
<li>Cell.cpp</li>
</ul>
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